bioBakery workflows is a collection of workflows and tasks for executing common microbial community analyses using standardized, validated tools and parameters.

Bioinformatics with Python Cookbook, Third Edition

Python Programming for Biologists

R toolkit for single cell genomics

CellPhoneDB can be used to search for a particular ligand/receptor, or interrogate your own HUMAN single-cell transcriptomics data.

JLab Nextflow ATACSeq Pipeline

Publication quality NGS track plotting

Analysis pipeline for ATACseq data using Nextflow

J-Lab nextflow repo hub

书籍txt

Snakemake pipeline to assemble a viral consensus sequence, and call iSNVs and haplotypes

This repository has teaching materials for a 2 and 3-day Introduction to RNA-sequencing data analysis workshop using the O2 Cluster

Bioinformatics data analysis and visualization toolkit

Open-source foundation of the user-sponsored PyMOL molecular visualization system.

Builds a docker container wrapping higlass-server and higlass-client in nginx

A repository of definition files for bootstrapping Singularity containers around the software applications, frameworks, and libraries you need to run on high-performance computing systems.

📦 🐳 Dockerfiles and documentation on tools for public health bioinformatics

Course material for CSAMA: Statistical Data Analysis for Genome Scale Biology

Repository for CSAMA 2016 course material

Introduction to large scale computing and data wrangling with hands-on tutorials

Python Programming for Biologists

Reference mapping for single-cell genomics

Single cell current best practices tutorial case study for the paper:Luecken and Theis, "Current best practices in single-cell RNA-seq analysis: a tutorial"

Analysis pipeline to detect germline or somatic variants (pre-processing, variant calling and annotation) from WGS / targeted sequencing

Sensitive and Fast Alignment Search Tool for Long Read sequencing Data.